Mercurial > repos > yhoogstrate > segmentation_fold

comparison utils_add-read-counts.xml @ 6:4d16cf9414cf draft default tip

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planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/galaxytools-emc/tree/master/tools/segmentation_fold commit 3a3c1d069e0a079d8ea7c0b4ac856ef24141b1aa
author erasmus-medical-center
date Fri, 24 Feb 2017 04:18:22 -0500
parents b7cf9b172cfe
children
comparison
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5:b7cf9b172cfe 6:4d16cf9414cf
3 3
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 7
8 <requirements> 8 <expand macro="requirements" />
9 <requirement type="package" version="2.7.10">python</requirement> 9 <expand macro="version_command" />
10 <requirement type="package" version="1.9">numpy</requirement>
11 <requirement type="package" version="0.8.2.1">pysam</requirement>
12 <requirement type="package" version="0.6.1">htseq</requirement>
13 <requirement type="package" version="2.1.0">segmentation-fold-utils</requirement>
14 </requirements>
15 <expand macro="stdio" />
16 10
17 <version_command>@VERSION_COMMAND_UTILS@</version_command> 11 <command detect_errors="aggressive"><![CDATA[
18
19 <command><![CDATA[
20 ln -f -s '${bam_input_file.metadata.bam_index}' '${bam_input_file}.bai' && 12 ln -f -s '${bam_input_file.metadata.bam_index}' '${bam_input_file}.bai' &&
21 13
22 segmentation-fold-utils 14 segmentation-fold-utils
23 add-read-counts 15 add-read-counts
24 --regex '${regex.replace("'","\\'")}' 16 --regex '${regex.replace("'","\\'")}'